Документ взят из кэша поисковой машины. Адрес оригинального документа : http://kodomo.fbb.msu.ru/~megabotan/term6/gibbs_r_200_o.txt Дата изменения: Wed May 30 16:48:26 2012 Дата индексирования: Tue Oct 2 14:26:39 2012 Кодировка: Поисковые слова: m 8

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/tmp/gibbs9054/Gibbs9054 /tmp/gibbs9054/data.txt 16 20 -E 2 -n -r -W 0.8 -w 0.1 -p 200 -j 5 -i 2000 -S 40 -C 0.5 -P /tmp/gibbs9054/prior.txt -R 1,1,8 -U /tmp/gibbs9054/spacing.txt -M 1,24 -B /tmp/gibbs9054/data.txt_info-det -y -nopt -o /tmp/gibbs9054/outfile.txt


Gibbs 3.10.001 Sep 8 2009
Data file: /tmp/gibbs9054/data.txt
Output file: /tmp/gibbs9054/outfile.txt
Priors file: /tmp/gibbs9054/prior.txt
Background Composition Model file: /tmp/gibbs9054/data.txt_info-det
Spacing Model file: /tmp/gibbs9054/spacing.txt
Current directory: /tmp/gibbs9054
The following options are set:
Concentrated Region False Sequence type False
Collapsed Alphabet False Pseudocount weight True
Use Expectation/Maximization False Don't Xnu sequence False
Help flag False Near optimal cutoff True
Number of iterations True Don't fragment False
Don't use map maximization False Repeat regions False
Output file True Informed priors file True
Plateau periods True palindromic sequence True
Don't Reverse complement True Number of seeds True
Seed Value False Pseudosite weight True
Suboptimal sampler output False Overlap False
Allow width to vary False Wilcoxon signed rank False
Sample along length False Output Scan File False
Output prior file False Modular Sampler True
Ignore Spacing Model False Sample Background False
Bkgnd Comp Model True Init from prior False
Homologous Seq pairs False Parallel Tempering False
Group Sampler False No progress info False
Fragment from middle False Verify Mode False
Alternate sample on k False No freq. soln. True
Calc. def. pseudo wt. False Motif/Recur smpl False
Phylogenetic Sampling False Supress Near Opt. True
Nearopt display cutoff False Sample model False
Hierarchical Model False Centroid model False
Print Bayesian Counts False Align Centroid False
Calculate Credibility Limits False Frequency Bkgnd. False

site_samp = 0
nMotifLen = 16
nAlphaLen = 4
nNumMotifs = 20
dPseudoCntWt = 0.1
dPseudoSiteWt = 0.8
nMaxIterations = 2000
lSeedVal = 1338374207
nPlateauPeriods = 200
nSeeds = 40
nNumMotifTypes = 1
dCutoff = 0.5
dNearOptDispCutoff = 0.5
RevComplement = 0
glOverlapParam = 0
Max Sites/seq = 2
Min Sites/Seq = 0
Rcutoff factor = 0
Post Plateau Samples = 0
Frag/Shft Per. = 5
Frag width = 24


Sequences to be Searched:
_________________________
#1 pheA
#2 aroH2
#3 tyrB
#4 aroKB2
#5 aroKB1
#6 aroF+tyrA
#7 aroA
#8 aroL
#9 aroC
#10 aroG
#11 aroD+ydiB
Processed Sequence Length: 2200 Total sequence length: 2200










======================================================================
======================== MAP MAXIMIZATION RESULTS ====================
======================================================================

-------------------------------------------------------------------------
MOTIF a

No Motifs Detected


Log Background portion of Map = -3044.36188
Log Alignment portion of Map = 0.00000
Log Site/seq portion of Map = -5.09395
Log Null Map = -3049.45583
Non Palindromic Map = 0.00000
Log Map = 0.00000


log MAP = sum of motif and fragmentation parts of MAP + background + alignment + sites/seq - Null

Frequency Map = 0.000000
Nearopt Map = 0.000000
Maximal Map = 0.000000
Elapsed time: 16.940000 secs